DGH-GO: Clustering genes disrupted by rare CNVs in ASD patients

Summary

This document shows the utility of DGH-GO in studying the genetic heterogeneity of Autism Spectrum Disorder (ASD).

• Data set (genes)
  • source:
  • Genes disrupted by rare CNVs in ASD patients were selected

Input genes

## preparing gene to GO mapping data...

## preparing IC data...

## [1] 3698    3

##      ALIAS ENTREZID                                  GENENAME
## 1 SERPINA3       12                  serpin family A member 3
## 2    AADAC       13                 arylacetamide deacetylase
## 3     AARS       16                    alanyl-tRNA synthetase
## 4     ABAT       18          4-aminobutyrate aminotransferase
## 5    ABCA1       19 ATP binding cassette subfamily A member 1
## 6    ABCA2       20 ATP binding cassette subfamily A member 2

## [1] 3698

## 
##  ASD 
## 3698

Dimension Reduction

Pricipal Coordinate Analysis

## [1] 2457 2458

T-SNE

Clustering

Agglomerative hierarchical clustering

## Warning: `gather_()` was deprecated in tidyr 1.2.0.
## Please use `gather()` instead.
## This warning is displayed once every 8 hours.
## Call `lifecycle::last_lifecycle_warnings()` to see where this warning was generated.

##   cluster size ave.sil.width
## 1       1 1512          0.29
## 2       2  945          0.08

## [1] 1512    3

##      genes class cluster
## 1 SERPINA3   ASD       1
## 2    AADAC   ASD       1
## 3     ABAT   ASD       1
## 4    ABCA1   ASD       1
## 5    ABCA2   ASD       1
## 6    ABCA3   ASD       1

## 
##  ASD 
## 1512

Functional enrichment analysis

## [1] "\n"

Enriched Human Phenotype Ontology terms

Enriched GO terms

Enriched KEGG Pathways